Multiple sequence alignment - TraesCS5B01G397400

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS5B01G397400 chr5B 100.000 2264 0 0 1 2264 575037732 575035469 0.000000e+00 4181.0
1 TraesCS5B01G397400 chr5B 92.052 2013 132 9 269 2255 529280724 529282734 0.000000e+00 2806.0
2 TraesCS5B01G397400 chr5B 90.968 465 39 2 1751 2212 649895068 649895532 6.870000e-175 623.0
3 TraesCS5B01G397400 chr2B 91.807 2014 136 14 268 2255 664330218 664328208 0.000000e+00 2778.0
4 TraesCS5B01G397400 chr2B 96.429 280 8 2 1 280 113961134 113961411 5.700000e-126 460.0
5 TraesCS5B01G397400 chr7B 95.300 1702 71 7 268 1964 36427799 36426102 0.000000e+00 2691.0
6 TraesCS5B01G397400 chr7B 91.866 209 17 0 2007 2215 36426100 36425892 2.200000e-75 292.0
7 TraesCS5B01G397400 chr5D 90.973 2005 130 20 268 2237 387242046 387244034 0.000000e+00 2652.0
8 TraesCS5B01G397400 chr5D 96.429 280 8 2 1 280 244475911 244476188 5.700000e-126 460.0
9 TraesCS5B01G397400 chr5D 96.071 280 9 2 1 280 380065099 380065376 2.650000e-124 455.0
10 TraesCS5B01G397400 chr4D 95.519 1540 60 6 268 1805 473970955 473969423 0.000000e+00 2453.0
11 TraesCS5B01G397400 chr4D 96.071 280 9 2 1 280 486583067 486583344 2.650000e-124 455.0
12 TraesCS5B01G397400 chr4D 85.647 425 48 9 1843 2255 473876267 473875844 3.450000e-118 435.0
13 TraesCS5B01G397400 chr6B 92.093 1758 92 24 268 1980 147950420 147948665 0.000000e+00 2433.0
14 TraesCS5B01G397400 chr6B 93.754 1537 88 5 269 1798 567117919 567116384 0.000000e+00 2300.0
15 TraesCS5B01G397400 chr6B 98.134 268 4 1 1 268 630656823 630656557 1.220000e-127 466.0
16 TraesCS5B01G397400 chr3D 94.603 1538 76 3 268 1798 558679570 558681107 0.000000e+00 2374.0
17 TraesCS5B01G397400 chr3D 96.071 280 9 2 1 280 501453380 501453657 2.650000e-124 455.0
18 TraesCS5B01G397400 chr4B 94.477 1539 76 6 268 1798 622503013 622501476 0.000000e+00 2362.0
19 TraesCS5B01G397400 chr1A 96.786 280 7 2 1 280 504549820 504550097 1.220000e-127 466.0
20 TraesCS5B01G397400 chr2A 97.778 270 5 1 1 270 195371 195639 4.400000e-127 464.0
21 TraesCS5B01G397400 chr2D 96.071 280 9 2 1 280 186597317 186597040 2.650000e-124 455.0
22 TraesCS5B01G397400 chr3B 82.684 231 38 2 2026 2255 10032287 10032058 1.060000e-48 204.0
23 TraesCS5B01G397400 chr7D 80.905 199 25 10 2066 2255 536967107 536967301 6.520000e-31 145.0
24 TraesCS5B01G397400 chr1D 74.869 191 40 8 1988 2174 491069862 491069676 1.860000e-11 80.5
25 TraesCS5B01G397400 chr6A 100.000 28 0 0 2025 2052 466348183 466348210 4.000000e-03 52.8
26 TraesCS5B01G397400 chr6A 100.000 28 0 0 2025 2052 466404742 466404769 4.000000e-03 52.8


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5B01G397400 chr5B 575035469 575037732 2263 True 4181.0 4181 100.000 1 2264 1 chr5B.!!$R1 2263
1 TraesCS5B01G397400 chr5B 529280724 529282734 2010 False 2806.0 2806 92.052 269 2255 1 chr5B.!!$F1 1986
2 TraesCS5B01G397400 chr2B 664328208 664330218 2010 True 2778.0 2778 91.807 268 2255 1 chr2B.!!$R1 1987
3 TraesCS5B01G397400 chr7B 36425892 36427799 1907 True 1491.5 2691 93.583 268 2215 2 chr7B.!!$R1 1947
4 TraesCS5B01G397400 chr5D 387242046 387244034 1988 False 2652.0 2652 90.973 268 2237 1 chr5D.!!$F3 1969
5 TraesCS5B01G397400 chr4D 473969423 473970955 1532 True 2453.0 2453 95.519 268 1805 1 chr4D.!!$R2 1537
6 TraesCS5B01G397400 chr6B 147948665 147950420 1755 True 2433.0 2433 92.093 268 1980 1 chr6B.!!$R1 1712
7 TraesCS5B01G397400 chr6B 567116384 567117919 1535 True 2300.0 2300 93.754 269 1798 1 chr6B.!!$R2 1529
8 TraesCS5B01G397400 chr3D 558679570 558681107 1537 False 2374.0 2374 94.603 268 1798 1 chr3D.!!$F2 1530
9 TraesCS5B01G397400 chr4B 622501476 622503013 1537 True 2362.0 2362 94.477 268 1798 1 chr4B.!!$R1 1530

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
77 78 0.323725 ATGTCCATGGTCAGGCAACC 60.324 55.0 16.79 2.35 39.94 3.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2002 2081 0.523072 CCACAACATACTGCCACTGC 59.477 55.0 0.0 0.0 38.26 4.4 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 2.787473 GGGTCTTGTCCATCACATCA 57.213 50.000 0.00 0.00 33.90 3.07
20 21 3.287867 GGGTCTTGTCCATCACATCAT 57.712 47.619 0.00 0.00 33.90 2.45
21 22 3.624777 GGGTCTTGTCCATCACATCATT 58.375 45.455 0.00 0.00 33.90 2.57
22 23 3.629398 GGGTCTTGTCCATCACATCATTC 59.371 47.826 0.00 0.00 33.90 2.67
23 24 4.521146 GGTCTTGTCCATCACATCATTCT 58.479 43.478 0.00 0.00 33.90 2.40
24 25 4.574013 GGTCTTGTCCATCACATCATTCTC 59.426 45.833 0.00 0.00 33.90 2.87
25 26 4.574013 GTCTTGTCCATCACATCATTCTCC 59.426 45.833 0.00 0.00 33.90 3.71
26 27 4.472470 TCTTGTCCATCACATCATTCTCCT 59.528 41.667 0.00 0.00 33.90 3.69
27 28 5.662657 TCTTGTCCATCACATCATTCTCCTA 59.337 40.000 0.00 0.00 33.90 2.94
28 29 5.955961 TGTCCATCACATCATTCTCCTAA 57.044 39.130 0.00 0.00 0.00 2.69
29 30 6.505048 TGTCCATCACATCATTCTCCTAAT 57.495 37.500 0.00 0.00 0.00 1.73
30 31 6.293698 TGTCCATCACATCATTCTCCTAATG 58.706 40.000 0.00 0.00 0.00 1.90
31 32 6.100134 TGTCCATCACATCATTCTCCTAATGA 59.900 38.462 3.13 3.13 40.50 2.57
32 33 7.166851 GTCCATCACATCATTCTCCTAATGAT 58.833 38.462 7.28 7.28 45.40 2.45
40 41 6.119240 TCATTCTCCTAATGATGTGATCCC 57.881 41.667 0.00 0.00 32.21 3.85
41 42 4.607293 TTCTCCTAATGATGTGATCCCG 57.393 45.455 0.00 0.00 0.00 5.14
42 43 3.576861 TCTCCTAATGATGTGATCCCGT 58.423 45.455 0.00 0.00 0.00 5.28
43 44 3.967326 TCTCCTAATGATGTGATCCCGTT 59.033 43.478 0.00 0.00 0.00 4.44
44 45 5.144832 TCTCCTAATGATGTGATCCCGTTA 58.855 41.667 0.00 0.00 0.00 3.18
45 46 5.780282 TCTCCTAATGATGTGATCCCGTTAT 59.220 40.000 0.00 0.00 0.00 1.89
46 47 6.037786 TCCTAATGATGTGATCCCGTTATC 57.962 41.667 0.00 0.00 0.00 1.75
47 48 5.542251 TCCTAATGATGTGATCCCGTTATCA 59.458 40.000 0.00 0.00 33.48 2.15
48 49 6.042666 TCCTAATGATGTGATCCCGTTATCAA 59.957 38.462 0.00 0.00 37.61 2.57
49 50 6.881065 CCTAATGATGTGATCCCGTTATCAAT 59.119 38.462 0.00 0.00 37.61 2.57
50 51 6.564709 AATGATGTGATCCCGTTATCAATG 57.435 37.500 0.00 0.00 37.61 2.82
51 52 5.289083 TGATGTGATCCCGTTATCAATGA 57.711 39.130 0.00 0.00 37.61 2.57
52 53 5.056480 TGATGTGATCCCGTTATCAATGAC 58.944 41.667 0.00 0.00 37.61 3.06
53 54 4.479786 TGTGATCCCGTTATCAATGACA 57.520 40.909 0.00 0.00 37.61 3.58
54 55 5.034852 TGTGATCCCGTTATCAATGACAT 57.965 39.130 0.00 0.00 37.61 3.06
55 56 5.056480 TGTGATCCCGTTATCAATGACATC 58.944 41.667 0.00 0.00 37.61 3.06
56 57 5.163311 TGTGATCCCGTTATCAATGACATCT 60.163 40.000 0.00 0.00 37.61 2.90
57 58 6.041523 TGTGATCCCGTTATCAATGACATCTA 59.958 38.462 0.00 0.00 37.61 1.98
58 59 6.929049 GTGATCCCGTTATCAATGACATCTAA 59.071 38.462 0.00 0.00 37.61 2.10
59 60 7.604164 GTGATCCCGTTATCAATGACATCTAAT 59.396 37.037 0.00 0.00 37.61 1.73
60 61 7.603784 TGATCCCGTTATCAATGACATCTAATG 59.396 37.037 0.00 0.00 32.97 1.90
72 73 4.428294 ACATCTAATGTCCATGGTCAGG 57.572 45.455 16.79 9.66 39.92 3.86
73 74 3.144506 CATCTAATGTCCATGGTCAGGC 58.855 50.000 16.79 2.61 0.00 4.85
74 75 2.195727 TCTAATGTCCATGGTCAGGCA 58.804 47.619 16.79 7.76 0.00 4.75
75 76 2.575735 TCTAATGTCCATGGTCAGGCAA 59.424 45.455 16.79 1.08 0.00 4.52
76 77 1.549203 AATGTCCATGGTCAGGCAAC 58.451 50.000 16.79 4.30 0.00 4.17
77 78 0.323725 ATGTCCATGGTCAGGCAACC 60.324 55.000 16.79 2.35 39.94 3.77
83 84 3.662290 TGGTCAGGCAACCATAACC 57.338 52.632 7.60 0.00 44.40 2.85
84 85 0.774276 TGGTCAGGCAACCATAACCA 59.226 50.000 7.60 0.00 44.40 3.67
85 86 1.357420 TGGTCAGGCAACCATAACCAT 59.643 47.619 7.60 0.00 44.40 3.55
86 87 2.024414 GGTCAGGCAACCATAACCATC 58.976 52.381 4.37 0.00 39.27 3.51
87 88 2.357154 GGTCAGGCAACCATAACCATCT 60.357 50.000 4.37 0.00 39.27 2.90
88 89 3.118038 GGTCAGGCAACCATAACCATCTA 60.118 47.826 4.37 0.00 39.27 1.98
89 90 4.446311 GGTCAGGCAACCATAACCATCTAT 60.446 45.833 4.37 0.00 39.27 1.98
90 91 5.133221 GTCAGGCAACCATAACCATCTATT 58.867 41.667 0.00 0.00 37.17 1.73
91 92 5.009010 GTCAGGCAACCATAACCATCTATTG 59.991 44.000 0.00 0.00 37.17 1.90
92 93 5.104151 TCAGGCAACCATAACCATCTATTGA 60.104 40.000 0.00 0.00 37.17 2.57
93 94 5.771666 CAGGCAACCATAACCATCTATTGAT 59.228 40.000 0.00 0.00 37.17 2.57
94 95 6.006449 AGGCAACCATAACCATCTATTGATC 58.994 40.000 0.00 0.00 37.17 2.92
95 96 5.769662 GGCAACCATAACCATCTATTGATCA 59.230 40.000 0.00 0.00 0.00 2.92
96 97 6.265196 GGCAACCATAACCATCTATTGATCAA 59.735 38.462 11.26 11.26 0.00 2.57
97 98 7.141363 GCAACCATAACCATCTATTGATCAAC 58.859 38.462 11.07 0.00 0.00 3.18
98 99 7.355017 CAACCATAACCATCTATTGATCAACG 58.645 38.462 11.07 5.26 0.00 4.10
99 100 6.591935 ACCATAACCATCTATTGATCAACGT 58.408 36.000 11.07 0.00 0.00 3.99
100 101 6.483307 ACCATAACCATCTATTGATCAACGTG 59.517 38.462 11.07 7.19 0.00 4.49
101 102 4.882671 AACCATCTATTGATCAACGTGC 57.117 40.909 11.07 0.00 0.00 5.34
102 103 4.142609 ACCATCTATTGATCAACGTGCT 57.857 40.909 11.07 0.00 0.00 4.40
103 104 5.276461 ACCATCTATTGATCAACGTGCTA 57.724 39.130 11.07 0.00 0.00 3.49
104 105 5.292765 ACCATCTATTGATCAACGTGCTAG 58.707 41.667 11.07 8.38 0.00 3.42
105 106 5.163405 ACCATCTATTGATCAACGTGCTAGT 60.163 40.000 11.07 0.77 0.00 2.57
106 107 5.403766 CCATCTATTGATCAACGTGCTAGTC 59.596 44.000 11.07 0.00 0.00 2.59
107 108 5.576447 TCTATTGATCAACGTGCTAGTCA 57.424 39.130 11.07 0.00 0.00 3.41
108 109 5.961272 TCTATTGATCAACGTGCTAGTCAA 58.039 37.500 11.07 0.00 0.00 3.18
109 110 4.928661 ATTGATCAACGTGCTAGTCAAC 57.071 40.909 11.07 0.00 0.00 3.18
110 111 3.660501 TGATCAACGTGCTAGTCAACT 57.339 42.857 0.00 0.00 0.00 3.16
111 112 4.776795 TGATCAACGTGCTAGTCAACTA 57.223 40.909 0.00 0.00 0.00 2.24
112 113 4.733850 TGATCAACGTGCTAGTCAACTAG 58.266 43.478 11.99 11.99 46.63 2.57
113 114 4.457949 TGATCAACGTGCTAGTCAACTAGA 59.542 41.667 19.03 3.93 46.80 2.43
114 115 4.421033 TCAACGTGCTAGTCAACTAGAG 57.579 45.455 19.03 11.89 46.80 2.43
115 116 3.190744 TCAACGTGCTAGTCAACTAGAGG 59.809 47.826 19.03 12.13 46.80 3.69
116 117 1.473278 ACGTGCTAGTCAACTAGAGGC 59.527 52.381 19.03 7.07 46.80 4.70
117 118 1.746220 CGTGCTAGTCAACTAGAGGCT 59.254 52.381 19.03 0.00 46.80 4.58
118 119 2.223386 CGTGCTAGTCAACTAGAGGCTC 60.223 54.545 19.03 6.34 46.80 4.70
119 120 2.755655 GTGCTAGTCAACTAGAGGCTCA 59.244 50.000 18.26 6.00 46.80 4.26
120 121 2.755655 TGCTAGTCAACTAGAGGCTCAC 59.244 50.000 18.26 4.72 46.80 3.51
121 122 3.020984 GCTAGTCAACTAGAGGCTCACT 58.979 50.000 18.26 12.32 46.80 3.41
122 123 4.200874 GCTAGTCAACTAGAGGCTCACTA 58.799 47.826 18.26 12.80 46.80 2.74
123 124 4.274950 GCTAGTCAACTAGAGGCTCACTAG 59.725 50.000 23.14 23.14 46.80 2.57
124 125 3.626930 AGTCAACTAGAGGCTCACTAGG 58.373 50.000 18.26 3.24 40.86 3.02
125 126 2.691011 GTCAACTAGAGGCTCACTAGGG 59.309 54.545 18.26 7.64 40.86 3.53
126 127 2.581246 TCAACTAGAGGCTCACTAGGGA 59.419 50.000 18.26 9.66 40.86 4.20
127 128 2.691011 CAACTAGAGGCTCACTAGGGAC 59.309 54.545 18.26 0.00 40.86 4.46
128 129 1.923850 ACTAGAGGCTCACTAGGGACA 59.076 52.381 18.26 0.00 40.86 4.02
129 130 2.516277 ACTAGAGGCTCACTAGGGACAT 59.484 50.000 18.26 0.00 40.86 3.06
130 131 1.786937 AGAGGCTCACTAGGGACATG 58.213 55.000 18.26 0.00 0.00 3.21
131 132 1.007721 AGAGGCTCACTAGGGACATGT 59.992 52.381 18.26 0.00 0.00 3.21
132 133 1.834263 GAGGCTCACTAGGGACATGTT 59.166 52.381 10.25 0.00 0.00 2.71
133 134 1.556911 AGGCTCACTAGGGACATGTTG 59.443 52.381 0.00 0.00 0.00 3.33
134 135 1.279271 GGCTCACTAGGGACATGTTGT 59.721 52.381 0.00 0.00 0.00 3.32
135 136 2.350522 GCTCACTAGGGACATGTTGTG 58.649 52.381 0.00 5.31 0.00 3.33
136 137 2.936993 GCTCACTAGGGACATGTTGTGG 60.937 54.545 0.00 0.00 0.00 4.17
137 138 2.303022 CTCACTAGGGACATGTTGTGGT 59.697 50.000 0.00 0.00 0.00 4.16
138 139 2.708861 TCACTAGGGACATGTTGTGGTT 59.291 45.455 0.00 0.00 0.00 3.67
139 140 3.137544 TCACTAGGGACATGTTGTGGTTT 59.862 43.478 0.00 0.00 0.00 3.27
140 141 4.348461 TCACTAGGGACATGTTGTGGTTTA 59.652 41.667 0.00 0.00 0.00 2.01
141 142 5.013704 TCACTAGGGACATGTTGTGGTTTAT 59.986 40.000 0.00 0.00 0.00 1.40
142 143 5.123820 CACTAGGGACATGTTGTGGTTTATG 59.876 44.000 0.00 0.00 0.00 1.90
143 144 4.112634 AGGGACATGTTGTGGTTTATGT 57.887 40.909 0.00 0.00 36.54 2.29
144 145 5.249780 AGGGACATGTTGTGGTTTATGTA 57.750 39.130 0.00 0.00 34.18 2.29
145 146 5.826643 AGGGACATGTTGTGGTTTATGTAT 58.173 37.500 0.00 0.00 34.18 2.29
146 147 6.252995 AGGGACATGTTGTGGTTTATGTATT 58.747 36.000 0.00 0.00 34.18 1.89
147 148 6.377146 AGGGACATGTTGTGGTTTATGTATTC 59.623 38.462 0.00 0.00 34.18 1.75
148 149 6.151985 GGGACATGTTGTGGTTTATGTATTCA 59.848 38.462 0.00 0.00 34.18 2.57
149 150 7.027161 GGACATGTTGTGGTTTATGTATTCAC 58.973 38.462 0.00 0.00 34.18 3.18
150 151 7.308891 GGACATGTTGTGGTTTATGTATTCACA 60.309 37.037 0.00 0.00 39.52 3.58
151 152 7.367285 ACATGTTGTGGTTTATGTATTCACAC 58.633 34.615 0.00 0.00 37.96 3.82
152 153 6.944234 TGTTGTGGTTTATGTATTCACACA 57.056 33.333 0.00 0.00 37.96 3.72
153 154 7.517614 TGTTGTGGTTTATGTATTCACACAT 57.482 32.000 0.00 0.00 41.88 3.21
154 155 7.366513 TGTTGTGGTTTATGTATTCACACATG 58.633 34.615 0.00 0.00 39.46 3.21
155 156 7.013750 TGTTGTGGTTTATGTATTCACACATGT 59.986 33.333 0.00 0.00 39.46 3.21
156 157 8.508062 GTTGTGGTTTATGTATTCACACATGTA 58.492 33.333 0.00 0.00 39.46 2.29
157 158 8.800370 TGTGGTTTATGTATTCACACATGTAT 57.200 30.769 0.00 0.00 39.46 2.29
158 159 9.237187 TGTGGTTTATGTATTCACACATGTATT 57.763 29.630 0.00 0.00 39.46 1.89
161 162 9.858247 GGTTTATGTATTCACACATGTATTACG 57.142 33.333 0.00 0.00 39.46 3.18
162 163 9.858247 GTTTATGTATTCACACATGTATTACGG 57.142 33.333 0.00 0.00 39.46 4.02
163 164 9.602568 TTTATGTATTCACACATGTATTACGGT 57.397 29.630 0.00 0.00 39.46 4.83
164 165 9.602568 TTATGTATTCACACATGTATTACGGTT 57.397 29.630 0.00 0.00 39.46 4.44
165 166 7.908827 TGTATTCACACATGTATTACGGTTT 57.091 32.000 0.00 0.00 0.00 3.27
166 167 7.966111 TGTATTCACACATGTATTACGGTTTC 58.034 34.615 0.00 0.00 0.00 2.78
167 168 5.866335 TTCACACATGTATTACGGTTTCC 57.134 39.130 0.00 0.00 0.00 3.13
168 169 4.895961 TCACACATGTATTACGGTTTCCA 58.104 39.130 0.00 0.00 0.00 3.53
169 170 4.932799 TCACACATGTATTACGGTTTCCAG 59.067 41.667 0.00 0.00 0.00 3.86
170 171 4.693566 CACACATGTATTACGGTTTCCAGT 59.306 41.667 0.00 0.00 0.00 4.00
171 172 5.180492 CACACATGTATTACGGTTTCCAGTT 59.820 40.000 0.00 0.00 0.00 3.16
172 173 6.369340 CACACATGTATTACGGTTTCCAGTTA 59.631 38.462 0.00 0.00 0.00 2.24
173 174 6.935771 ACACATGTATTACGGTTTCCAGTTAA 59.064 34.615 0.00 0.00 0.00 2.01
174 175 7.608761 ACACATGTATTACGGTTTCCAGTTAAT 59.391 33.333 0.00 0.00 0.00 1.40
175 176 9.100554 CACATGTATTACGGTTTCCAGTTAATA 57.899 33.333 0.00 0.00 0.00 0.98
176 177 9.101655 ACATGTATTACGGTTTCCAGTTAATAC 57.898 33.333 0.00 0.00 32.58 1.89
177 178 9.100554 CATGTATTACGGTTTCCAGTTAATACA 57.899 33.333 17.27 17.27 40.70 2.29
178 179 9.669887 ATGTATTACGGTTTCCAGTTAATACAA 57.330 29.630 18.06 9.65 40.20 2.41
179 180 9.669887 TGTATTACGGTTTCCAGTTAATACAAT 57.330 29.630 14.94 0.00 36.55 2.71
185 186 8.833493 ACGGTTTCCAGTTAATACAATTATAGC 58.167 33.333 0.00 0.00 0.00 2.97
186 187 8.832521 CGGTTTCCAGTTAATACAATTATAGCA 58.167 33.333 0.00 0.00 0.00 3.49
252 253 7.839680 AACCATTTTATTATTGCCTCTAGGG 57.160 36.000 0.00 0.00 35.18 3.53
290 291 1.240641 TTGCATTTGATGACGGCGGT 61.241 50.000 13.24 0.00 0.00 5.68
542 543 4.927978 ACACCGGAATGAAACAATTTGA 57.072 36.364 9.46 0.00 0.00 2.69
579 580 2.440409 GAGCCACCAGACATCAACAAT 58.560 47.619 0.00 0.00 0.00 2.71
594 595 5.787953 TCAACAATTGTGGACAATGTGAT 57.212 34.783 12.82 0.39 45.06 3.06
606 607 2.173356 ACAATGTGATGATCCGGGACAT 59.827 45.455 12.61 12.61 0.00 3.06
651 652 1.142667 TCAAGGACTGATGCCAACACA 59.857 47.619 0.00 0.00 0.00 3.72
727 728 3.402681 CTGGTGGCCGTGGAGGAT 61.403 66.667 0.00 0.00 45.00 3.24
728 729 2.039787 TGGTGGCCGTGGAGGATA 59.960 61.111 0.00 0.00 45.00 2.59
854 855 2.953284 AGGACGAGGAGGATCGATAA 57.047 50.000 0.00 0.00 45.56 1.75
884 886 5.163652 GGCCTATTGACGTTTTGCTTAATCT 60.164 40.000 0.00 0.00 0.00 2.40
902 904 9.899226 GCTTAATCTGGATGGTTGAAATAATAC 57.101 33.333 0.00 0.00 0.00 1.89
909 911 6.149633 GGATGGTTGAAATAATACGAATGGC 58.850 40.000 0.00 0.00 0.00 4.40
1019 1022 0.107017 ATGGCTTCATCCGGTTCCAG 60.107 55.000 0.00 0.00 0.00 3.86
1245 1248 2.423538 GCTTCCAACAAACGCCTATGAT 59.576 45.455 0.00 0.00 0.00 2.45
1348 1352 1.079543 CAGTCACCGCCTCCTCTTG 60.080 63.158 0.00 0.00 0.00 3.02
1471 1475 2.500910 CAGAGAGGCTTGGATGAAGAGT 59.499 50.000 0.00 0.00 32.82 3.24
1884 1962 0.105142 ACCCTACCGCCATAGTCCAT 60.105 55.000 0.00 0.00 0.00 3.41
1916 1994 4.279043 GCACCCAACCGCCAACAC 62.279 66.667 0.00 0.00 0.00 3.32
1930 2008 2.939261 AACACGAGTGGCGGTAGGG 61.939 63.158 8.19 0.00 46.49 3.53
1931 2009 3.379445 CACGAGTGGCGGTAGGGT 61.379 66.667 0.00 0.00 46.49 4.34
1932 2010 2.602568 ACGAGTGGCGGTAGGGTT 60.603 61.111 0.00 0.00 46.49 4.11
2000 2079 4.798682 AGGGACCCTACCGCCAGG 62.799 72.222 12.85 0.00 45.13 4.45
2014 2093 2.683465 CCAGGGGCAGTGGCAGTAT 61.683 63.158 19.48 0.00 43.71 2.12
2064 2157 1.397390 CGGTAGGCCCAGGTATTCGT 61.397 60.000 0.00 0.00 0.00 3.85
2072 2165 0.530650 CCAGGTATTCGTGCGCAGAT 60.531 55.000 12.22 8.31 0.00 2.90
2106 2201 2.899838 TGGTGTGCGCAACAGGAC 60.900 61.111 15.41 3.80 40.26 3.85
2116 2211 1.542187 GCAACAGGACGGACCCTACT 61.542 60.000 0.00 0.00 40.05 2.57
2123 2218 1.612442 ACGGACCCTACTGCCACAT 60.612 57.895 0.00 0.00 0.00 3.21
2247 2342 8.296713 ACAATGTGTATAATTCTGTTGTCAACC 58.703 33.333 13.13 0.00 0.00 3.77
2255 2350 2.653726 TCTGTTGTCAACCATGTTGCT 58.346 42.857 13.13 0.00 0.00 3.91
2256 2351 2.358582 TCTGTTGTCAACCATGTTGCTG 59.641 45.455 13.13 0.00 0.00 4.41
2257 2352 2.098614 TGTTGTCAACCATGTTGCTGT 58.901 42.857 13.13 0.00 0.00 4.40
2258 2353 3.282885 TGTTGTCAACCATGTTGCTGTA 58.717 40.909 13.13 0.00 0.00 2.74
2259 2354 3.314913 TGTTGTCAACCATGTTGCTGTAG 59.685 43.478 13.13 0.00 0.00 2.74
2260 2355 2.503331 TGTCAACCATGTTGCTGTAGG 58.497 47.619 2.13 0.00 0.00 3.18
2261 2356 2.105649 TGTCAACCATGTTGCTGTAGGA 59.894 45.455 2.13 0.00 0.00 2.94
2262 2357 3.244875 TGTCAACCATGTTGCTGTAGGAT 60.245 43.478 2.13 0.00 0.00 3.24
2263 2358 3.375299 GTCAACCATGTTGCTGTAGGATC 59.625 47.826 2.13 0.00 0.00 3.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.787473 TGATGTGATGGACAAGACCC 57.213 50.000 0.00 0.00 38.36 4.46
1 2 4.521146 AGAATGATGTGATGGACAAGACC 58.479 43.478 0.00 0.00 38.36 3.85
2 3 4.574013 GGAGAATGATGTGATGGACAAGAC 59.426 45.833 0.00 0.00 38.36 3.01
3 4 4.472470 AGGAGAATGATGTGATGGACAAGA 59.528 41.667 0.00 0.00 38.36 3.02
4 5 4.778579 AGGAGAATGATGTGATGGACAAG 58.221 43.478 0.00 0.00 38.36 3.16
5 6 4.849813 AGGAGAATGATGTGATGGACAA 57.150 40.909 0.00 0.00 38.36 3.18
6 7 5.955961 TTAGGAGAATGATGTGATGGACA 57.044 39.130 0.00 0.00 39.53 4.02
7 8 6.528321 TCATTAGGAGAATGATGTGATGGAC 58.472 40.000 0.00 0.00 32.21 4.02
8 9 6.752285 TCATTAGGAGAATGATGTGATGGA 57.248 37.500 0.00 0.00 32.21 3.41
16 17 6.575847 CGGGATCACATCATTAGGAGAATGAT 60.576 42.308 6.90 6.90 45.40 2.45
17 18 5.279657 CGGGATCACATCATTAGGAGAATGA 60.280 44.000 0.00 2.66 40.50 2.57
18 19 4.934001 CGGGATCACATCATTAGGAGAATG 59.066 45.833 0.00 0.00 0.00 2.67
19 20 4.594920 ACGGGATCACATCATTAGGAGAAT 59.405 41.667 0.00 0.00 0.00 2.40
20 21 3.967326 ACGGGATCACATCATTAGGAGAA 59.033 43.478 0.00 0.00 0.00 2.87
21 22 3.576861 ACGGGATCACATCATTAGGAGA 58.423 45.455 0.00 0.00 0.00 3.71
22 23 4.342862 AACGGGATCACATCATTAGGAG 57.657 45.455 0.00 0.00 0.00 3.69
23 24 5.542251 TGATAACGGGATCACATCATTAGGA 59.458 40.000 0.00 0.00 30.75 2.94
24 25 5.793817 TGATAACGGGATCACATCATTAGG 58.206 41.667 0.00 0.00 30.75 2.69
25 26 7.603784 TCATTGATAACGGGATCACATCATTAG 59.396 37.037 0.00 0.00 35.56 1.73
26 27 7.387673 GTCATTGATAACGGGATCACATCATTA 59.612 37.037 0.00 0.00 35.56 1.90
27 28 6.205464 GTCATTGATAACGGGATCACATCATT 59.795 38.462 0.00 0.00 35.56 2.57
28 29 5.702670 GTCATTGATAACGGGATCACATCAT 59.297 40.000 0.00 0.00 35.56 2.45
29 30 5.056480 GTCATTGATAACGGGATCACATCA 58.944 41.667 0.00 0.00 35.56 3.07
30 31 5.056480 TGTCATTGATAACGGGATCACATC 58.944 41.667 0.00 0.00 35.56 3.06
31 32 5.034852 TGTCATTGATAACGGGATCACAT 57.965 39.130 0.00 0.00 35.56 3.21
32 33 4.479786 TGTCATTGATAACGGGATCACA 57.520 40.909 0.00 0.00 35.56 3.58
33 34 5.300752 AGATGTCATTGATAACGGGATCAC 58.699 41.667 0.00 0.00 35.56 3.06
34 35 5.551305 AGATGTCATTGATAACGGGATCA 57.449 39.130 0.00 0.00 33.96 2.92
35 36 7.604164 ACATTAGATGTCATTGATAACGGGATC 59.396 37.037 0.00 0.00 39.92 3.36
36 37 7.453393 ACATTAGATGTCATTGATAACGGGAT 58.547 34.615 0.00 0.00 39.92 3.85
37 38 6.826668 ACATTAGATGTCATTGATAACGGGA 58.173 36.000 0.00 0.00 39.92 5.14
52 53 3.144506 GCCTGACCATGGACATTAGATG 58.855 50.000 21.47 5.31 0.00 2.90
53 54 2.779430 TGCCTGACCATGGACATTAGAT 59.221 45.455 21.47 0.00 0.00 1.98
54 55 2.195727 TGCCTGACCATGGACATTAGA 58.804 47.619 21.47 0.00 0.00 2.10
55 56 2.684881 GTTGCCTGACCATGGACATTAG 59.315 50.000 21.47 11.31 0.00 1.73
56 57 2.620367 GGTTGCCTGACCATGGACATTA 60.620 50.000 21.47 4.95 39.57 1.90
57 58 1.549203 GTTGCCTGACCATGGACATT 58.451 50.000 21.47 0.00 0.00 2.71
58 59 0.323725 GGTTGCCTGACCATGGACAT 60.324 55.000 21.47 0.00 39.57 3.06
59 60 1.074775 GGTTGCCTGACCATGGACA 59.925 57.895 21.47 18.47 39.57 4.02
60 61 1.074775 TGGTTGCCTGACCATGGAC 59.925 57.895 21.47 13.94 44.53 4.02
61 62 3.586543 TGGTTGCCTGACCATGGA 58.413 55.556 21.47 0.00 44.53 3.41
66 67 2.024414 GATGGTTATGGTTGCCTGACC 58.976 52.381 0.00 0.00 40.23 4.02
67 68 3.004752 AGATGGTTATGGTTGCCTGAC 57.995 47.619 0.00 0.00 0.00 3.51
68 69 5.104151 TCAATAGATGGTTATGGTTGCCTGA 60.104 40.000 0.00 0.00 0.00 3.86
69 70 5.132502 TCAATAGATGGTTATGGTTGCCTG 58.867 41.667 0.00 0.00 0.00 4.85
70 71 5.387113 TCAATAGATGGTTATGGTTGCCT 57.613 39.130 0.00 0.00 0.00 4.75
71 72 5.769662 TGATCAATAGATGGTTATGGTTGCC 59.230 40.000 0.00 0.00 33.72 4.52
72 73 6.882610 TGATCAATAGATGGTTATGGTTGC 57.117 37.500 0.00 0.00 33.72 4.17
73 74 7.012327 ACGTTGATCAATAGATGGTTATGGTTG 59.988 37.037 12.12 0.00 33.72 3.77
74 75 7.012327 CACGTTGATCAATAGATGGTTATGGTT 59.988 37.037 12.12 0.00 33.72 3.67
75 76 6.483307 CACGTTGATCAATAGATGGTTATGGT 59.517 38.462 12.12 0.00 33.72 3.55
76 77 6.566564 GCACGTTGATCAATAGATGGTTATGG 60.567 42.308 12.12 0.00 33.72 2.74
77 78 6.203530 AGCACGTTGATCAATAGATGGTTATG 59.796 38.462 12.12 3.38 33.72 1.90
78 79 6.291377 AGCACGTTGATCAATAGATGGTTAT 58.709 36.000 12.12 0.00 33.72 1.89
79 80 5.670485 AGCACGTTGATCAATAGATGGTTA 58.330 37.500 12.12 0.00 33.72 2.85
80 81 4.517285 AGCACGTTGATCAATAGATGGTT 58.483 39.130 12.12 1.23 33.72 3.67
81 82 4.142609 AGCACGTTGATCAATAGATGGT 57.857 40.909 12.12 10.15 33.72 3.55
82 83 5.292765 ACTAGCACGTTGATCAATAGATGG 58.707 41.667 12.12 7.93 33.72 3.51
83 84 5.979517 TGACTAGCACGTTGATCAATAGATG 59.020 40.000 12.12 8.80 33.72 2.90
84 85 6.149129 TGACTAGCACGTTGATCAATAGAT 57.851 37.500 12.12 6.12 37.13 1.98
85 86 5.576447 TGACTAGCACGTTGATCAATAGA 57.424 39.130 12.12 0.00 0.00 1.98
86 87 5.807520 AGTTGACTAGCACGTTGATCAATAG 59.192 40.000 12.12 10.97 0.00 1.73
87 88 5.720202 AGTTGACTAGCACGTTGATCAATA 58.280 37.500 12.12 0.00 0.00 1.90
88 89 4.569943 AGTTGACTAGCACGTTGATCAAT 58.430 39.130 12.12 0.00 0.00 2.57
89 90 3.990092 AGTTGACTAGCACGTTGATCAA 58.010 40.909 3.38 3.38 0.00 2.57
90 91 3.660501 AGTTGACTAGCACGTTGATCA 57.339 42.857 0.00 0.00 0.00 2.92
91 92 4.982999 TCTAGTTGACTAGCACGTTGATC 58.017 43.478 12.30 0.00 44.24 2.92
92 93 4.142359 CCTCTAGTTGACTAGCACGTTGAT 60.142 45.833 12.30 0.00 44.24 2.57
93 94 3.190744 CCTCTAGTTGACTAGCACGTTGA 59.809 47.826 12.30 0.00 44.24 3.18
94 95 3.502920 CCTCTAGTTGACTAGCACGTTG 58.497 50.000 12.30 0.00 44.24 4.10
95 96 2.094649 GCCTCTAGTTGACTAGCACGTT 60.095 50.000 12.30 0.00 44.24 3.99
96 97 1.473278 GCCTCTAGTTGACTAGCACGT 59.527 52.381 12.30 0.00 44.24 4.49
97 98 1.746220 AGCCTCTAGTTGACTAGCACG 59.254 52.381 12.30 4.60 44.24 5.34
98 99 2.755655 TGAGCCTCTAGTTGACTAGCAC 59.244 50.000 12.30 5.42 44.24 4.40
99 100 2.755655 GTGAGCCTCTAGTTGACTAGCA 59.244 50.000 12.30 3.14 44.24 3.49
100 101 3.020984 AGTGAGCCTCTAGTTGACTAGC 58.979 50.000 12.30 3.61 44.24 3.42
101 102 4.819630 CCTAGTGAGCCTCTAGTTGACTAG 59.180 50.000 11.14 11.14 45.57 2.57
102 103 4.385421 CCCTAGTGAGCCTCTAGTTGACTA 60.385 50.000 0.00 0.00 34.72 2.59
103 104 3.626222 CCCTAGTGAGCCTCTAGTTGACT 60.626 52.174 0.00 0.00 34.72 3.41
104 105 2.691011 CCCTAGTGAGCCTCTAGTTGAC 59.309 54.545 0.00 0.00 34.72 3.18
105 106 2.581246 TCCCTAGTGAGCCTCTAGTTGA 59.419 50.000 0.00 4.76 34.72 3.18
106 107 2.691011 GTCCCTAGTGAGCCTCTAGTTG 59.309 54.545 0.00 3.20 34.72 3.16
107 108 2.312140 TGTCCCTAGTGAGCCTCTAGTT 59.688 50.000 0.00 0.00 34.72 2.24
108 109 1.923850 TGTCCCTAGTGAGCCTCTAGT 59.076 52.381 0.00 0.00 34.72 2.57
109 110 2.738587 TGTCCCTAGTGAGCCTCTAG 57.261 55.000 0.00 0.00 35.86 2.43
110 111 2.245028 ACATGTCCCTAGTGAGCCTCTA 59.755 50.000 0.00 0.00 0.00 2.43
111 112 1.007721 ACATGTCCCTAGTGAGCCTCT 59.992 52.381 0.00 0.00 0.00 3.69
112 113 1.490574 ACATGTCCCTAGTGAGCCTC 58.509 55.000 0.00 0.00 0.00 4.70
113 114 1.556911 CAACATGTCCCTAGTGAGCCT 59.443 52.381 0.00 0.00 0.00 4.58
114 115 1.279271 ACAACATGTCCCTAGTGAGCC 59.721 52.381 0.00 0.00 0.00 4.70
115 116 2.350522 CACAACATGTCCCTAGTGAGC 58.649 52.381 0.00 0.00 0.00 4.26
116 117 2.303022 ACCACAACATGTCCCTAGTGAG 59.697 50.000 0.00 0.00 0.00 3.51
117 118 2.334977 ACCACAACATGTCCCTAGTGA 58.665 47.619 0.00 0.00 0.00 3.41
118 119 2.859165 ACCACAACATGTCCCTAGTG 57.141 50.000 0.00 3.77 0.00 2.74
119 120 3.876309 AAACCACAACATGTCCCTAGT 57.124 42.857 0.00 0.00 0.00 2.57
120 121 5.253330 ACATAAACCACAACATGTCCCTAG 58.747 41.667 0.00 0.00 0.00 3.02
121 122 5.249780 ACATAAACCACAACATGTCCCTA 57.750 39.130 0.00 0.00 0.00 3.53
122 123 4.112634 ACATAAACCACAACATGTCCCT 57.887 40.909 0.00 0.00 0.00 4.20
123 124 6.151985 TGAATACATAAACCACAACATGTCCC 59.848 38.462 0.00 0.00 33.78 4.46
124 125 7.027161 GTGAATACATAAACCACAACATGTCC 58.973 38.462 0.00 0.00 33.78 4.02
125 126 7.537306 GTGTGAATACATAAACCACAACATGTC 59.463 37.037 0.00 0.00 39.13 3.06
126 127 7.013750 TGTGTGAATACATAAACCACAACATGT 59.986 33.333 0.00 0.00 39.13 3.21
127 128 7.366513 TGTGTGAATACATAAACCACAACATG 58.633 34.615 0.00 0.00 39.13 3.21
128 129 7.517614 TGTGTGAATACATAAACCACAACAT 57.482 32.000 0.00 0.00 39.13 2.71
129 130 6.944234 TGTGTGAATACATAAACCACAACA 57.056 33.333 0.00 0.00 39.13 3.33
130 131 7.367285 ACATGTGTGAATACATAAACCACAAC 58.633 34.615 0.00 0.00 39.17 3.32
131 132 7.517614 ACATGTGTGAATACATAAACCACAA 57.482 32.000 0.00 0.00 39.17 3.33
132 133 8.800370 ATACATGTGTGAATACATAAACCACA 57.200 30.769 9.11 0.00 39.17 4.17
135 136 9.858247 CGTAATACATGTGTGAATACATAAACC 57.142 33.333 9.11 0.00 39.17 3.27
136 137 9.858247 CCGTAATACATGTGTGAATACATAAAC 57.142 33.333 9.11 0.00 39.17 2.01
137 138 9.602568 ACCGTAATACATGTGTGAATACATAAA 57.397 29.630 9.11 0.00 39.17 1.40
138 139 9.602568 AACCGTAATACATGTGTGAATACATAA 57.397 29.630 9.11 0.00 39.17 1.90
139 140 9.602568 AAACCGTAATACATGTGTGAATACATA 57.397 29.630 9.11 0.00 39.17 2.29
140 141 8.500753 AAACCGTAATACATGTGTGAATACAT 57.499 30.769 9.11 0.00 41.77 2.29
141 142 7.064847 GGAAACCGTAATACATGTGTGAATACA 59.935 37.037 9.11 0.00 34.63 2.29
142 143 7.064847 TGGAAACCGTAATACATGTGTGAATAC 59.935 37.037 9.11 0.76 0.00 1.89
143 144 7.104290 TGGAAACCGTAATACATGTGTGAATA 58.896 34.615 9.11 0.00 0.00 1.75
144 145 5.941058 TGGAAACCGTAATACATGTGTGAAT 59.059 36.000 9.11 0.00 0.00 2.57
145 146 5.306394 TGGAAACCGTAATACATGTGTGAA 58.694 37.500 9.11 0.00 0.00 3.18
146 147 4.895961 TGGAAACCGTAATACATGTGTGA 58.104 39.130 9.11 0.00 0.00 3.58
147 148 4.693566 ACTGGAAACCGTAATACATGTGTG 59.306 41.667 9.11 0.00 0.00 3.82
148 149 4.901868 ACTGGAAACCGTAATACATGTGT 58.098 39.130 9.11 0.00 0.00 3.72
149 150 5.873179 AACTGGAAACCGTAATACATGTG 57.127 39.130 9.11 0.00 0.00 3.21
150 151 9.101655 GTATTAACTGGAAACCGTAATACATGT 57.898 33.333 2.69 2.69 32.37 3.21
151 152 9.100554 TGTATTAACTGGAAACCGTAATACATG 57.899 33.333 17.47 0.00 35.38 3.21
152 153 9.669887 TTGTATTAACTGGAAACCGTAATACAT 57.330 29.630 19.66 0.00 38.15 2.29
153 154 9.669887 ATTGTATTAACTGGAAACCGTAATACA 57.330 29.630 17.47 17.47 37.23 2.29
159 160 8.833493 GCTATAATTGTATTAACTGGAAACCGT 58.167 33.333 0.00 0.00 0.00 4.83
160 161 8.832521 TGCTATAATTGTATTAACTGGAAACCG 58.167 33.333 0.00 0.00 0.00 4.44
226 227 9.533831 CCCTAGAGGCAATAATAAAATGGTTAT 57.466 33.333 0.00 0.00 0.00 1.89
227 228 8.934023 CCCTAGAGGCAATAATAAAATGGTTA 57.066 34.615 0.00 0.00 0.00 2.85
228 229 7.839680 CCCTAGAGGCAATAATAAAATGGTT 57.160 36.000 0.00 0.00 0.00 3.67
244 245 6.656693 CACTATTGGAAAATATGCCCTAGAGG 59.343 42.308 0.00 0.00 39.47 3.69
245 246 6.150140 GCACTATTGGAAAATATGCCCTAGAG 59.850 42.308 0.00 0.00 0.00 2.43
246 247 6.003950 GCACTATTGGAAAATATGCCCTAGA 58.996 40.000 0.00 0.00 0.00 2.43
247 248 6.006449 AGCACTATTGGAAAATATGCCCTAG 58.994 40.000 0.00 0.00 31.94 3.02
248 249 5.952387 AGCACTATTGGAAAATATGCCCTA 58.048 37.500 0.00 0.00 31.94 3.53
249 250 4.808042 AGCACTATTGGAAAATATGCCCT 58.192 39.130 0.00 0.00 31.94 5.19
250 251 5.291971 CAAGCACTATTGGAAAATATGCCC 58.708 41.667 0.00 0.00 31.94 5.36
251 252 4.746611 GCAAGCACTATTGGAAAATATGCC 59.253 41.667 0.00 0.00 31.94 4.40
252 253 5.350633 TGCAAGCACTATTGGAAAATATGC 58.649 37.500 0.00 0.00 0.00 3.14
253 254 8.332464 CAAATGCAAGCACTATTGGAAAATATG 58.668 33.333 0.00 0.00 34.01 1.78
254 255 8.259411 TCAAATGCAAGCACTATTGGAAAATAT 58.741 29.630 13.55 0.00 34.01 1.28
255 256 7.609960 TCAAATGCAAGCACTATTGGAAAATA 58.390 30.769 13.55 0.00 34.01 1.40
256 257 6.465948 TCAAATGCAAGCACTATTGGAAAAT 58.534 32.000 13.55 0.00 34.01 1.82
257 258 5.851720 TCAAATGCAAGCACTATTGGAAAA 58.148 33.333 13.55 0.00 34.01 2.29
258 259 5.465532 TCAAATGCAAGCACTATTGGAAA 57.534 34.783 13.55 0.00 34.01 3.13
259 260 5.185442 TCATCAAATGCAAGCACTATTGGAA 59.815 36.000 13.55 1.41 34.01 3.53
260 261 4.705991 TCATCAAATGCAAGCACTATTGGA 59.294 37.500 13.55 2.90 34.85 3.53
261 262 4.802039 GTCATCAAATGCAAGCACTATTGG 59.198 41.667 13.55 0.00 0.00 3.16
262 263 4.497966 CGTCATCAAATGCAAGCACTATTG 59.502 41.667 0.00 3.99 0.00 1.90
263 264 4.439153 CCGTCATCAAATGCAAGCACTATT 60.439 41.667 0.00 0.00 0.00 1.73
264 265 3.065786 CCGTCATCAAATGCAAGCACTAT 59.934 43.478 0.00 0.00 0.00 2.12
265 266 2.419673 CCGTCATCAAATGCAAGCACTA 59.580 45.455 0.00 0.00 0.00 2.74
266 267 1.200716 CCGTCATCAAATGCAAGCACT 59.799 47.619 0.00 0.00 0.00 4.40
290 291 1.536766 CATGCAAGTTTCTCGCCTTGA 59.463 47.619 0.00 0.00 40.36 3.02
579 580 3.009026 CGGATCATCACATTGTCCACAA 58.991 45.455 0.00 0.00 40.51 3.33
594 595 4.039973 GTCCTAACATTATGTCCCGGATCA 59.960 45.833 0.73 1.15 0.00 2.92
606 607 6.656632 TTTTTGGTGCATGTCCTAACATTA 57.343 33.333 9.70 0.00 43.74 1.90
631 632 1.142667 TGTGTTGGCATCAGTCCTTGA 59.857 47.619 0.00 0.00 40.85 3.02
651 652 4.273318 GAACACCCATTTGGATAGAGCTT 58.727 43.478 0.00 0.00 37.39 3.74
727 728 6.347696 GTGCACTACCTCTAAGACTAGTCTA 58.652 44.000 25.42 9.64 39.39 2.59
728 729 5.187687 GTGCACTACCTCTAAGACTAGTCT 58.812 45.833 20.00 20.00 42.75 3.24
854 855 3.434940 AAACGTCAATAGGCCTTCCTT 57.565 42.857 12.58 0.00 40.66 3.36
884 886 6.238897 GCCATTCGTATTATTTCAACCATCCA 60.239 38.462 0.00 0.00 0.00 3.41
902 904 3.000122 CACAAAACAACAAGTGCCATTCG 60.000 43.478 0.00 0.00 0.00 3.34
1348 1352 5.023533 TCTATCCATGTGAAGTACTTGCC 57.976 43.478 14.14 3.48 34.14 4.52
1471 1475 2.493675 CCATCTTCTCCTTCTGACGACA 59.506 50.000 0.00 0.00 0.00 4.35
1912 1990 2.654877 CCTACCGCCACTCGTGTT 59.345 61.111 0.00 0.00 36.19 3.32
1916 1994 2.183555 GAACCCTACCGCCACTCG 59.816 66.667 0.00 0.00 38.08 4.18
1965 2044 3.723097 TTCCTGTTGCGCACCCCAA 62.723 57.895 11.12 0.00 0.00 4.12
2000 2079 0.609131 ACAACATACTGCCACTGCCC 60.609 55.000 0.00 0.00 36.33 5.36
2002 2081 0.523072 CCACAACATACTGCCACTGC 59.477 55.000 0.00 0.00 38.26 4.40
2004 2083 2.504367 GAACCACAACATACTGCCACT 58.496 47.619 0.00 0.00 0.00 4.00
2060 2153 1.446099 GTCTGGATCTGCGCACGAA 60.446 57.895 5.66 0.00 0.00 3.85
2064 2157 0.671472 CAAGTGTCTGGATCTGCGCA 60.671 55.000 10.98 10.98 0.00 6.09
2106 2201 1.153369 CATGTGGCAGTAGGGTCCG 60.153 63.158 0.00 0.00 0.00 4.79
2123 2218 1.687840 ACACCCTACCGCCATAGCA 60.688 57.895 0.00 0.00 39.83 3.49
2237 2332 2.098614 ACAGCAACATGGTTGACAACA 58.901 42.857 19.58 6.77 0.00 3.33


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.